Sample Resequencing Stats
Note: The mutation counts shown below represent unfiltered mutation sets.
| ALE, Flask, Isolate |
Predicted Mutations |
Mean Coverage |
Total Reads |
Percent Mapped |
Mapped Reads |
Average Read Length |
|
A1 F8 I0 R1
|
311 |
50.1 |
4085234 |
95.9% |
3917739 |
60.7 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
W3110S.gb |
1,207,066 |
A→G |
20.6% |
E440E (GAA→GAG) |
ymfN → |
predicted DNA‑binding transcriptional regulator |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 1,207,066 | 0 | A | G | 20.6%
| 67.2
/ 14.4
| 34 | E440E (GAA→GAG) | ymfN | predicted DNA‑binding transcriptional regulator |
| Reads supporting (aligned to +/- strand): ref base A (15/12); new base G (3/4); total (18/16) |
| Fisher's exact test for biased strand distribution p-value = 6.81e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.85e-01 |
CGGAAAACAAAATCGATGGTGCAGTTGCGCTGATTATGGCGGTTGGCAGAGCCATGCTGTACGAGAAAGAAGACACGCTGTCTGATCACATTGAGTCCTACGGGATCCGCTCGCTTTAACTGAGGTAATTATGATCATGCT > W3110S.gb/1206996‑1207136
|
cGGAAAACAAAATCGATGGTGCAGTTGCGCTGATTATGGCGGTTGGCAGAGCCATGCTGTACGagaaagaa < 1:1296738/71‑1 (MQ=255)
cGGAAAACAAAATCGATGGTGCAGTTGCGCTGATTATGGCGGTTGGCAGAGCCATGCTGTACGagaaagaa < 1:3453319/71‑1 (MQ=255)
cGGAAAACAAAATCGATGGTGCAGTTGCGCTGATTATGGCGGTTGGCAGAGCCATGCTGTACGagaaagaa < 1:1593971/71‑1 (MQ=255)
aaaaCAAAATCGATGGTGCAGTTGCGCTGATTATGGCGGTTGGCAGAGCCATGCTGTACGagaaagaa < 1:1032600/68‑1 (MQ=255)
aaaaCAAAATCGATGGTGCAGTTGCGCTGATTATGGCGGTTGGCAGAGCCATGCTGTACGagaaagaa < 1:1172347/68‑1 (MQ=255)
aaaaCAAAATCGATGGTGCAGTTGCGCTGATTATGGCGGTTGGCAGAGCCATGCTGTACGagaaagaa < 1:1291908/68‑1 (MQ=255)
aaaaCAAAATCGATGGTGCAGTTGCGCTGATTATGGCGGTTGGCAGAGCCATGCTGTACGagaaagaa < 1:3627874/68‑1 (MQ=255)
aaaaCAAAATCGATGGTGCAGTTGCGCTGATTATGGCGGTTGGCAGAGCCATGCTGTACGagaaagaa < 1:2403904/68‑1 (MQ=255)
aaaaTCGATGGTGCAGTTGCGCTGATTATGGCGGTTGGCAGAGCCGTGCTGTACGAGAAAGAAGACACGCt < 1:782536/71‑1 (MQ=255)
gATGGTGCAGTTGCGCTGATTATGGCGGTTGGCAGAGCCATGCTGTACGAGAAAGAGGACACGCTGTCTGa > 1:168316/1‑71 (MQ=255)
ggTGCAGTTGCGCTGATTATGGCGGTTGGCAGAGCCATGCTGTATGAGAAAGAGGACACGCTGTCTGATca > 1:452218/1‑71 (MQ=255)
ggTGCAGTTGCGCTGATTATGGCGGTTGGCAGAGCCATGCTGTACGAGAAAGAGGACACGCTGTCTGATca > 1:45726/1‑71 (MQ=255)
gTGCAGTTGCGCTGATTATGGCGGTTGGCAGAGCCATGCTGTACGAGAAAGAAGACACGCTGTCTGATcac < 1:2473335/71‑1 (MQ=255)
gTGCAGTTGCGCTGATTATGGCGGTTGGCAGAGCCATGCTGTACGAGAAAGAAGACACGCTGTCTGATca < 1:470031/70‑1 (MQ=255)
tGCAGTTGCGCTGATTATGGCGGTTGGCAGAGCCATGCTGTACGAGAAAGAAGACACGCTGTCTGATca < 1:2615614/69‑1 (MQ=255)
cAGTTGCGCTGATTATGGCGGTTGGCAGAGCCATGCTGTACGAGAAAGAGGACACGCTGTCTGATCACAtt < 1:1980648/71‑1 (MQ=255)
cAGTTGCGCTGATTATGGCGGTTGGCAGAGCCATGCTGTACGAGAAAGAGGACACGCTGTCTGATCACAtt < 1:453294/71‑1 (MQ=255)
ttGCGCTGATTATGGCGGTTGGCAGAGTCATGCTGTACGAGAAAGAAGACACGCTGTCTGATCACATTGAg < 1:1365078/71‑1 (MQ=255)
ttGCGCTGATTATGGCGGTTGGCAGAGCCATGCTGTACGAGAAAGAAGACACGCTGTCTGATCACATTGAg < 1:2723560/71‑1 (MQ=255)
tGCGCTGATTATGGCGGTTGGCAGAGCCATGCTGTACGAGAAAGAAGACACGCTGTCTGATCACATTGAg > 1:3934709/1‑70 (MQ=255)
tGCGCTGATTATGGCGGTTGGCAGAGCCATGCTGTACGAGAAAGAAGACACGCTGTCTGATCACATTGAGt > 1:3124349/1‑71 (MQ=255)
tGCGCTGATTATGGCGGTTGGCAGAGCCATGCTGTACGAGAAAGAAGACACGCTGTCTGATCACATTGAGt > 1:3816543/1‑71 (MQ=255)
tGCGCTGATTATGGCGGTTGGCAGAGCCATGCTGTACGAGAAAGAAGACACGCTGTCTGATCACATTGAGt > 1:1400452/1‑71 (MQ=255)
tGCGCTGATTATGGCGGTTGGCAGAGCCATGCTGTACGAGAAAGAAGACACGCTGTCTGATCACATTGAGt > 1:921271/1‑71 (MQ=255)
gcgcTGATTATGGCGGTTGGCAGAGCCATGCTGTACGAGAAagaaga > 1:419201/1‑47 (MQ=255)
gcgcTGATTATGGCGGTTGGCAGAGCCATGCTGTACGAGAAAGAAGACACGCTGTCTGATCACATTGAGTc > 1:16451/1‑71 (MQ=255)
gcgcTGATTATGGCGGTTGGCAGAGCCATGCTGTACGAGAAAGAAGACACGCTGTCTGATCACATTGAGTc > 1:1537249/1‑71 (MQ=255)
cTGATTATGGCGGTTGGCAGAGCCATGCTGTACGAGAAAGAAGACACGCTGTCTg < 1:3938200/55‑1 (MQ=255)
gATTATGGCGGTTGGCAGAGCCATGCTGTACGAGAAAGAAGACACGCTGTCTGATCACATTGAGTCCTACg > 1:3845953/1‑71 (MQ=255)
tATGGCGGTTGGCAGAGCCATGCTGTACGAGAAAGAAGac > 1:2503139/1‑40 (MQ=255)
tATGGCGGTTGGCAGAGCCATGCTGTACGAGAAAGAAGac > 1:915979/1‑40 (MQ=255)
tATGGCGGTTGGCAGAGCCATGCTGTACGAGAAAGAAGac > 1:3901359/1‑40 (MQ=255)
cGGTTGGCAGAGCCATGCTGTACGAGAAAGAAGACACGCTGTCTGATCACATTGAGTCCTACGGGATCcgc < 1:534503/71‑1 (MQ=255)
ttGGCAGAGCCATGCTGTACGAGAAAGAAGACACGCTGTCTGATCACATTGAGTCCTACggg < 1:738304/62‑1 (MQ=255)
ttGGCAGAGCCATGCTGTACGAGAAAGAAGACACGCTGTCTGATCACATTGAGTCCTACggg < 1:2455167/62‑1 (MQ=255)
tGGCAGAGCCATGCTGTACGAGAAAGAAGACACGCTGTCTGATCACATTGAGTCCTACGGGATCcgctcgc > 1:3472316/1‑71 (MQ=255)
cAGAGCCATGCTGTACGAGAAAGAGGACACGCTGTCTGATCACATTGAGTCCTACGGGATCCGCTCGCttt < 1:1038574/71‑1 (MQ=255)
cAGAGCCATGCTGTACGAGAAAGAGGACACGCTGTCTGATCACATTGAGTCCTACGGGATCCGCTCGCttt < 1:2480356/71‑1 (MQ=255)
cAGAGCCATGATGTACGAGAAAGAAGACACGCTGTCTGATCACATTGAGTCCTACGGGATCCGCTCGCttt < 1:1904194/71‑1 (MQ=255)
ccATGCTGTACGAGAAAGAAGACACGCTGTCTGATCACATTGAGTCCTACGGGATCCGCTCGCTTTAACTg < 1:3416879/71‑1 (MQ=255)
cTGTACGAGAAAGAAGACACGCTGTCTGATCACATTGAGTCCTACGGGATCcgctc > 1:261896/1‑56 (MQ=255)
cTGTACGAGAAAGAAGACACGCTGTCTGATCACATTGAGTCCTACGGGATCCGCTCGCTTTAACTGAgg > 1:739341/1‑69 (MQ=255)
cTGTACGAGAAAGAAGACACGCTGTCTGATCACATTGAGTCCTACGGGATCCGCTCGCTTTAACTGAGGt > 1:3262065/1‑70 (MQ=255)
gaaagagGACACGCTGTCTGATCACATTGAGTCCTACGGGATCCGCTCGCTTTAACTGAGGTAAtt < 1:3816095/66‑1 (MQ=255)
gaaagagGACACGCTGTCTGATCACATTGAGTCCTACGGGATCCGCTCGCTTTAACTGAGGTAAtt < 1:919758/66‑1 (MQ=255)
agaggaCACGCTGTCTGATCACATTGAGTCCTACGGGATCCGCTCGCTTTAACTGAGGTAATTATGATCAt > 1:3254284/1‑71 (MQ=255)
agaCACGCTGTCTGATCACATTGAGTCCTACGGGATCCGCTCGCTTTAACTGAGGTAATTATGATCATGCt < 1:2688312/71‑1 (MQ=255)
agaCACGCTGTCTGATCACATTGAGTCCTACGGGATCCGCTCGCTTTAACTGAGGTAATTATGATCATGCt < 1:2537400/71‑1 (MQ=255)
agaCACGCTGTCTGATCACATTGAGTCCTACGGGATCCGCTCGCTTTAACTGAGGTAATTATGATCATGCt < 1:895347/71‑1 (MQ=255)
|
CGGAAAACAAAATCGATGGTGCAGTTGCGCTGATTATGGCGGTTGGCAGAGCCATGCTGTACGAGAAAGAAGACACGCTGTCTGATCACATTGAGTCCTACGGGATCCGCTCGCTTTAACTGAGGTAATTATGATCATGCT > W3110S.gb/1206996‑1207136
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
